MmuINT0025655 @ mm9
Intron Retention
Gene
ENSMUSG00000024335 | Brd2
Description
bromodomain containing 2 [Source:MGI Symbol;Acc:MGI:99495]
Coordinates
chr17:34252307-34252751:-
Coord C1 exon
chr17:34252613-34252751
Coord A exon
chr17:34252522-34252612
Coord C2 exon
chr17:34252307-34252521
Length
91 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
CTTTTGTTACTGTTTTGTAGCAC
3' ss Score
7.77
Exon sequences
Seq C1 exon
CCCACCGATGATATTGTCCTAATGGCACAGACACTGGAAAAGATCTTCCTACAGAAAGTAGCATCCATGCCACAAGAGGAGCAAGAGCTTGTGGTGACCATCCCTAAAAACAGCCATAAGAAGGGGGCCAAGTTAGCAG
Seq A exon
GTAGGAAGTGGTGACCTAAAGACAAAGCTATTCAGGTGACCTGAAGATACAAATGAGCAACACTTACCTGTCTTTTGTTACTGTTTTGTAG
Seq C2 exon
CACTCCAGGGCAGTATTACCAGTGCCCATCAGGTGCCTGCTGTCTCTTCTGTGTCGCATACAGCCCTGTATACACCACCACCTGAAATACCTACCACTGTCCTCAACATTCCCCACCCATCAGTCATCTCTTCTCCTCTTCTTAAGTCCCTGCATTCTGCTGGACCCCCACTCCTTGCTGTATCAGCAGCGCCTCCAGCTCAGCCCCTTGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024335-Brd2:NM_010238:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.210 A=NA C2=0.500
Domain overlap (PFAM):
C1:
PF0043920=Bromodomain=PD(11.8=21.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAAGAGCTTGTGGTGACCAT
R:
ATGGGTGGGGAATGTTGAGGA
Band lengths:
179-270
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: